genome.fa.s11.2.7.7.80.10.50.1000.30.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   

This is table  30  of  75  ( 8944 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9261654--9261725	30	2.4	30	88	2	110	23	20	34	20	1.96
9265897--9265950	19	2.8	19	85	0	72	20	22	24	33	1.97
9265919--9265959	19	2.2	19	86	0	55	21	17	21	39	1.93
9270368--9270421	26	2.1	26	100	0	108	38	12	3	44	1.61
9276612--9276647	8	4.5	8	100	0	72	25	0	0	75	0.81
9276655--9276702	23	2.1	23	100	0	96	12	29	8	50	1.69
9279760--9279794	18	1.9	18	88	0	52	42	2	0	54	1.15
9289601--9290163	289	1.9	289	89	2	873	36	10	19	34	1.85
9291949--9291973	4	6.2	4	100	0	50	52	0	0	48	1.00
9292543--9292754	106	2.0	106	97	1	399	50	5	8	34	1.57
9293036--9294249	612	2.0	606	92	1	2025	33	16	14	36	1.89
9298945--9298975	7	4.4	7	100	0	62	16	12	0	70	1.16
9309232--9309278	19	2.6	18	87	12	69	23	4	2	70	1.16
9309229--9309289	19	3.2	20	81	11	65	26	3	3	67	1.22
9315218--9315299	38	2.2	38	86	6	114	30	17	17	35	1.92
9328823--9328879	30	1.9	30	82	3	71	29	0	10	59	1.31
9331131--9331435	108	2.9	105	87	2	430	31	19	18	31	1.95
9331983--9332016	17	1.9	18	94	5	61	41	0	20	38	1.53
9333674--9333823	40	3.7	40	80	8	162	24	22	24	29	1.99
9342293--9342332	17	2.3	18	95	4	73	37	0	20	42	1.52
9343915--9344439	40	12.9	41	81	10	325	24	21	24	30	1.99
9343915--9344445	122	4.3	123	88	4	697	23	21	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9343954--9344430	162	2.9	161	89	3	683	24	21	23	29	1.99
9344896--9345098	108	1.9	108	85	4	284	48	10	15	25	1.77
9346694--9346747	27	2.0	27	100	0	108	22	25	29	22	1.99
9355167--9355471	108	2.9	105	83	2	351	33	18	17	30	1.94
9355957--9355984	2	14.0	2	100	0	56	50	0	0	50	1.00
9356021--9356060	17	2.3	18	95	4	73	37	0	20	42	1.52
9358003--9358050	17	2.8	17	72	12	53	70	2	0	27	0.98
9365508--9365539	13	2.5	13	89	0	55	28	0	12	59	1.34
9368273--9368377	49	2.1	50	82	1	122	26	20	22	29	1.99
9368405--9368498	49	1.9	49	91	0	152	23	20	27	28	1.99
9368286--9368528	121	2.0	121	86	0	333	25	20	26	27	1.99
9368474--9368628	50	3.1	50	75	0	166	24	23	22	29	1.99
9368425--9368628	100	2.1	99	84	0	273	24	22	23	29	1.99
9383539--9383695	39	3.9	39	84	5	156	44	19	3	33	1.66
9383730--9383772	16	2.7	15	79	10	50	48	25	0	25	1.51
9395120--9395155	8	4.5	8	92	0	63	47	0	16	36	1.47
9394993--9396276	335	3.9	335	90	6	2138	29	9	22	38	1.86
9395537--9396147	309	2.0	309	96	1	1127	28	9	23	38	1.86
9396104--9396134	16	1.9	16	100	0	62	41	0	19	38	1.51
9397797--9397867	34	2.2	33	87	10	101	42	5	9	42	1.61
9398643--9398745	20	5.2	20	71	0	80	35	22	22	19	1.96
9398652--9398745	40	2.3	40	83	0	107	35	22	22	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9416277--9416319	18	2.5	17	82	14	52	6	23	2	67	1.27
9417531--9417560	11	2.7	11	89	0	51	13	6	3	76	1.11
9419352--9420162	269	3.0	269	90	1	1232	38	10	15	35	1.82
9421152--9421217	25	2.6	25	76	9	71	28	21	19	30	1.98
9430738--9430768	10	3.1	10	90	0	53	22	9	19	48	1.78
9438412--9438512	36	2.8	36	83	0	121	15	13	37	32	1.87
9442894--9443090	50	3.8	50	80	7	182	28	20	27	23	1.99
9445722--9445859	39	3.5	39	88	0	186	30	2	21	44	1.67
9445770--9445840	22	3.4	22	64	20	53	32	2	21	43	1.67
9447392--9451032	482	7.6	481	85	3	4280	29	10	21	37	1.88
9447392--9451012	963	3.8	960	84	4	4277	29	10	21	37	1.88
9451105--9452461	482	2.8	481	84	2	1690	29	10	22	37	1.87
9452494--9452526	16	2.1	16	94	0	57	36	3	36	24	1.71
9453152--9453188	16	2.2	17	86	13	51	54	0	0	45	1.00
9456157--9460563	481	9.2	479	83	4	5082	30	10	21	37	1.87
9458062--9460563	482	5.2	482	83	3	3019	29	10	22	38	1.87
9465968--9466036	23	3.0	22	72	16	68	66	5	7	20	1.37
9466022--9466055	14	2.5	13	81	9	50	73	0	17	8	1.08
9469542--9469568	13	2.1	13	100	0	54	37	7	7	48	1.59
9470213--9470244	15	2.1	15	94	0	55	31	28	15	25	1.96
9471491--9471577	37	2.4	37	76	7	95	36	13	16	33	1.88
9476177--9476227	26	2.0	26	100	0	102	35	15	11	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9484901--9484931	16	1.9	16	93	0	53	25	16	25	32	1.96
9491140--9491181	21	2.0	21	90	0	66	30	9	26	33	1.88
9491463--9491495	12	2.8	12	86	4	50	69	9	6	15	1.34
9506081--9506115	17	1.9	18	88	11	54	57	0	28	14	1.38
9506101--9506216	51	2.3	51	82	10	132	46	5	20	27	1.72
9507843--9508475	29	21.8	29	88	1	865	19	27	13	39	1.89
9514074--9514117	20	2.2	20	100	0	88	22	9	15	52	1.71
9519442--9519473	16	2.0	16	93	0	55	25	15	0	59	1.36
9524207--9524259	23	2.3	23	96	0	97	30	24	20	24	1.99
9524346--9524374	8	3.6	8	100	0	58	34	27	13	24	1.93
9546430--9546482	25	2.1	25	92	0	88	22	7	20	49	1.74
9548007--9548637	152	4.2	149	87	5	874	31	9	7	52	1.61
9548007--9548637	302	2.1	305	89	5	951	31	9	7	52	1.61
9550659--9550710	21	2.4	22	87	6	70	71	11	3	13	1.28
9551216--9551265	25	2.0	25	84	4	64	26	12	2	60	1.43
9553069--9553119	25	2.0	25	81	7	59	50	3	3	41	1.39
9562624--9562721	23	4.3	23	82	0	115	44	21	15	18	1.86
9562622--9562721	46	2.2	46	90	0	155	45	21	15	19	1.86
9566780--9566821	21	2.2	19	87	12	59	19	26	4	50	1.67
9566787--9566840	21	2.5	21	84	3	72	22	31	5	40	1.77
9570649--9570946	50	5.8	50	82	3	281	23	28	20	27	1.99
9584013--9584054	17	2.4	17	81	14	50	71	9	7	11	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9588841--9588908	27	2.6	27	80	13	70	22	8	27	41	1.83
9588852--9588907	27	2.1	27	83	12	71	21	7	26	44	1.78
9593257--9593292	18	1.9	19	94	5	65	36	19	0	44	1.51
9597126--9597198	29	2.5	29	82	4	85	17	27	13	41	1.88
9599750--9600109	181	2.0	181	95	0	648	31	18	16	33	1.93
9613203--9613245	14	3.1	15	87	9	56	32	20	23	23	1.98
9622460--9622554	25	3.8	25	76	2	82	30	24	18	26	1.98
9623326--9623368	21	2.0	21	86	8	61	53	20	0	25	1.46
9623976--9624034	28	2.1	27	81	12	66	52	5	3	38	1.40
9626948--9626992	22	2.0	22	83	8	56	40	4	0	55	1.20
9627375--9627411	18	2.0	19	89	5	58	5	43	0	51	1.24
9639429--9639470	21	2.0	21	95	0	75	42	11	0	45	1.41
9639352--9639690	94	3.7	92	72	14	277	36	18	6	38	1.77
9639628--9639796	70	2.4	69	82	2	214	37	15	7	39	1.77
9640188--9640415	93	2.5	93	91	1	368	33	21	7	37	1.81
9644977--9645152	85	2.0	86	97	2	336	35	4	8	51	1.53
9646930--9646987	29	2.1	28	84	9	75	50	18	5	25	1.68
9654384--9654423	17	2.4	17	86	0	53	22	32	20	25	1.98
9655829--9655878	18	2.8	18	81	0	64	46	24	6	24	1.75
9658658--9658689	6	5.2	6	92	7	55	15	15	0	68	1.21
9658664--9658799	58	2.4	58	85	11	185	26	19	4	50	1.66
9675877--9675924	22	2.2	22	84	0	60	27	4	25	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9675806--9675934	52	2.4	52	81	2	150	29	2	21	46	1.64
9678839--9678924	43	2.0	43	93	0	145	32	10	18	38	1.85
9682683--9682759	24	3.4	24	74	17	83	15	18	20	45	1.85
9682775--9682822	20	2.4	20	82	0	51	8	20	27	43	1.80
9691444--9691468	8	3.1	8	100	0	50	36	0	12	52	1.39
9694799--9694850	18	2.8	19	79	5	61	44	5	0	50	1.26
9696147--9696196	25	2.0	25	100	0	100	36	20	16	28	1.93
9709285--9709471	48	3.9	48	100	0	374	27	21	22	27	1.99
9728340--9728388	16	3.1	16	85	2	55	40	8	6	44	1.59
9729432--9729475	22	2.0	23	81	4	54	56	2	0	40	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75